Statistical analyses on high-thoughput sequencing of B cell and T cell receptors
Abstract/Contents
- Abstract
- The immune system is typically described as having two major branches: the adaptive branch, and the innate branch. In the adaptive immune system, T cells and B cells learn to discern foreign pathogens from self. B cell repertoires mediate the host's ability to mount appropriately pathogen-specific humoral responses against immunological challenges. VDJ somatic recombination of the immunoglobulin chains, affinity maturation, and B cell clonal selection all contribute to the generation of a healthy B cell repertoire. Despite starting from only a limited number of genomic segments, these processes lead to diverse and optimized repertoires of clones, where each clone has its own distinct binding specificity for foreign antigens. High depth sequencing data on the repertoire of B cell receptors has enabled us to examine the diverse receptors in great detail. My thesis will showcase three aspects of the B cell repertoire in terms of how they relate to ageing and/or pathology: clonal convergence, clonal expansion, and phylogenetic hypermutation. In a separate but related work, we apply a novel combination of sequencing method and statistical techniques to examine T cell receptors. We raised the lower bounds on T cell receptor repertoires beta chain richness in healthy humans, and examined how T cell receptor diversity relates to age.
Description
| Type of resource | text |
|---|---|
| Form | electronic; electronic resource; remote |
| Extent | 1 online resource. |
| Publication date | 2014 |
| Issuance | monographic |
| Language | English |
Creators/Contributors
| Associated with | Liu, Yi |
|---|---|
| Associated with | Stanford University, Department of Biomedical Informatics. |
| Primary advisor | Boyd, Scott, 1970- |
| Primary advisor | Koller, Daphne |
| Thesis advisor | Boyd, Scott, 1970- |
| Thesis advisor | Koller, Daphne |
| Thesis advisor | Fire, Andrew Zachary |
| Thesis advisor | Olshen, Richard A, 1942- |
| Advisor | Fire, Andrew Zachary |
| Advisor | Olshen, Richard A, 1942- |
Subjects
| Genre | Theses |
|---|
Bibliographic information
| Statement of responsibility | Yi Liu. |
|---|---|
| Note | Submitted to the Department of Biomedical Informatics. |
| Thesis | Thesis (Ph.D.)--Stanford University, 2014. |
| Location | electronic resource |
Access conditions
- Copyright
- © 2014 by Yi Liu
- License
- This work is licensed under a Creative Commons Attribution Non Commercial 3.0 Unported license (CC BY-NC).
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